RetrogeneDB ID: retro_ttru_1939

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_99585:9681..10499(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: KIAA0895
• Ensembl ID: ENSTTRG00000002703
• Aliases: None
• Description: KIAA0895 [Source:HGNC Symbol;Acc:22206]

Sequence

>retro_ttru_1939
CCTCGCCCCCCAGCGCCCGCCGCCCGCGGCCTCATTGGGACGATGCTGGAGTCCACTCGCGGAACGGAAAAGCTTCACTG
GCCTGAGCAAGAACTTGCTAAGAAGTCTATTCTAAATGCAGAAGAGTCCTTGATCATTGACAGCAAAAGAAGCATGCCAC
ATTTACCTCCTGGAATACTAAAGGACATTTTCACAACTGGAACCAGTAGTTACAATGTCCTACTACAGAGCAAAGAGGAG
AAAGAGCATCATTCACTAAAACAGTCTTCCTCCACTTACTCCAAAAGATGTAGAAAACCCAGCAATCTCGTAGCTCTTCA
TGTAGTAAAGATCTTCACAAGATAAAAGCCCCAGTGCCTGTGATGAGCAGTGGTACTTGGTACTGCCTACAGAGGCAGCC
TGCTGTTTTTGTCACTAGTTCAGTGTCAAGTCCTGTAAAGTTTACACATGGTATCTCTGTCACAGGAAACAGCGTAGTAC
TGCCACCTACACCCCAAAATGAAAGAAAGGTCAAGCGACGCCATTTCCCTACTTTTCCAAAGCCAAAGCCGCAGTCTCAG
CTGTCTAGAAGTTTTGAAAAAGGAGATGAATTTTCTGGAAGGAAATTTTGTATACTGACTGCTATAAAGCCCACCAACTT
GGAGAAAGAAAAAGTGACTCTTAAGTCTGACTTCACCTACAATCCTCAGTTTGAATATGCTAATCCTTCTCTGCTAAGTG
TCTTAACCAAGCACAACAAAGCAACTGACCAGTTTCTTAAGCAGGTAAAATGCTACTTCAGTAGTGGTATTTCATTTTAT
GTAATGAAAACAATCATT

Alignment

ORF - retro_ttru_1939 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.29 %
• Parental protein coverage: 50.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PAPAEPAARGLSGTMLESIRVTEKLHWPEQELAKKSILNAEESLIIGSKGSISHLSPGILKDIFTTGTSS
          P.P..PAARGL.GTMLES.R.TEKLHWPEQELAKKSILNAEESLII.SK.S..HL.PGILKDIFTTGTSS
Retrocopy PRPPAPAARGLIGTMLESTRGTEKLHWPEQELAKKSILNAEESLIIDSKRSMPHLPPGILKDIFTTGTSS

Parental  YNVLLQSKEEKKHHSQKQSSSTYSKRCR-KPSKS-SSSRSKDLRKMKAPVPVMSSDTWYCLERQPAVFVT
          YNVLLQSKEEK.HHS.KQSSSTYSKRCR.K...S.SSS.SKDL.K.KAPVPVMSS.TWYCL.RQPAVFVT
Retrocopy YNVLLQSKEEKEHHSLKQSSSTYSKRCR<KTQQSRSSSCSKDLHKIKAPVPVMSSGTWYCLQRQPAVFVT

Parental  SSVSSPVKFTHDISVTGNSTVLPPKPKNERKVKRRHFSTLPKPKLQPQLSRSFEKGDDFSGKKFCILSAI
          SSVSSPVKFTH.ISVTGNS.VLPP.P.NERKVKRRHF.T.PKPK.Q.QLSRSFEKGD.FSG.KFCIL.AI
Retrocopy SSVSSPVKFTHGISVTGNSVVLPPTPQNERKVKRRHFPTFPKPKPQSQLSRSFEKGDEFSGRKFCILTAI

Parental  KPTNLEKEKLSLKSDFTYNPQFEYANPSLLSVLTKHNKATDRFLKQIVVHLTEDLLSRASMTVV
          KPTNLEKEK..LKSDFTYNPQFEYANPSLLSVLTKHNKATD.FLKQ...............T..
Retrocopy KPTNLEKEKVTLKSDFTYNPQFEYANPSLLSVLTKHNKATDQFLKQVKCYFSSGISFYVMKTII

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_1939 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1939 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000002703	1 retrocopy	retro_ttru_1939 ,